RTA hangs in the middle of GAIIX run

[rocksd]

We started a PE run but to my dismay RTA stopped in the middle of the run. After the first read, we stop the run and restarted RTA but it did not help. We reinstalled RTA and start RTA again but it did not help either. Illumina tech support suggested scratch the run, reinstall SBS software and RTA. Anyone had similar experience before and how did you solved the problem? Thanks a million!

James

[kmcarr]

Are you saving the images to an off instrument computer? If so then just complete your run without RTA and run OLB on the saved instruments.

If you aren't saving the images then I think you may be hosed. We had a couple of instances of RTA dying, but that was long ago with RTA 1.4; nothing more recent. In those cases we could not get RTA restarted. Fortunately we were saving the images and could analyze offline.

[HESmith]

Check your local drives to see if one of them is full. Insufficient memory can cause RTA to hang without generating an error message.

-Harold

[zukey]

We had a very similar case here. RTA stopped in Read1. But RTA1.8 did get intensities from images and certainly deleted images. We finished Read2. Then, we just use OLB convert the intensities to qseq files. Everything looks okay. Make sure you have the intensities files inside Data/Intensities/L00x/Cx.1/*.cif

Good Luck,

Qi